Hi Diogo, If you have an idea of the distribution of this fossil value, you should probably use an mcmc sampler to fit the model and provide priors on this root state (I can show you how to do this with any general-purpose sampler). Otherwise, if you want to constrain the model on a single fossil value (eventually incorporating known sampling variance), the simpler way would be to add a very small branch near the place you want your fossil. You can use the same data (along with the fossil) and modified tree with all the models and include your known sampling variance (error) to the functions.
Best wishes, Julien ________________________________ De : R-sig-phylo <r-sig-phylo-boun...@r-project.org> de la part de Diogo B. Provete <dbprov...@gmail.com> Envoy� : jeudi 1 juin 2023 15:55 � : r-sig-phylo@r-project.org <r-sig-phylo@r-project.org> Objet : [R-sig-phylo] Including intraspecific variation (SE) in geiger::fitContinousMCMC Dear list, we have a dataset of mean body size (carapace length) for extant whip spiders and a dated phylogeny. We also have data on the body size of fossil taxa. In geiger::fitContinuousMCMC it's easy to include that information as a root prior. But we also have intraspecific variation of body size for extant species, to which we calculated the standard error. It's easy to include that in geiger::fitContinuous. Question: We'd like to include both intraspecific variation and fossil body size as root prior while fitting alternative evolutionary models at once. Is there a way to do that in a single function? Thank you very much in advance, Diogo -- Diogo B. Provete, PhD Assistant Professor Biodiversity Synthesis lab <http://diogoprovete.weebly.com/> Biosciences Institute | Federal University of Mato Grosso do Sul | Brazil Associate Editor: Ecology and Evolution | Evolution | Frontiers in Ecology and the Environment | Journal of Biogeography | Journal of Herpetology <https://journalofherpetology.com/> | PeerJ [[alternative HTML version deleted]] _______________________________________________ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/ [[alternative HTML version deleted]]
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